Journal
BIOINFORMATICS
Volume 21, Issue 14, Pages 3191-3192Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/bti475
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ABNER ( A Biomedical Named Entity Recognizer) is an open source software tool for molecular biology text mining. At its core is a machine learning system using conditional random fields with a variety of orthographic and contextual features. The latest version is 1.5, which has an intuitive graphical interface and includes two modules for tagging entities ( e. g. protein and cell line) trained on standard corpora, for which performance is roughly state of the art. It also includes a Java application programming interface allowing users to incorporate ABNER into their own systems and train models on new corpora.
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